This article aims to analyze the policy strategies implemented for the commercial shipping development of the Apo Dock in Jayapura port to improve port performance towards strengthening the sea highway program. Apo Dock as a shipping commercial in Jayapura port has weaknesses as identified by the observation and the study of primary data. These weaknesses have resulted in price disparities for the Papua province as port functions well as a logistical hub. Based on the Strengthen-Weakness-Opportunity-Threats (SWOT) analysis results, it was concluded that the Apo Dock performance as the Jayapura Port Commercial Route was in quota I with a position (0.83; 1.44). The strategy used by Jayapura port to develop commercial shipping to be more efficient in accordance with its function as the strength-opportunity (SO) strategy. The SO strategy strengthens the commercial shipping function as a support base for the economic development centers and a government supporter in MP3EI, the commercial port facilities and infrastructure development were established in order to support all port activities and efficiency, and develop hinterland areas to maximize the busy and crowded commercial shipping hub.